Chemical Components in the PDB

pdbe.org/chem
wwPDB
EMDataBank
spacer

PDBeChem : Atoms of Molecule

 Molecule : HY5

Atoms of a chemical element, that composes a molecule

Total Number of Atoms: 104


Record Atom Name Symbol PDB Name Stereochemistry Is Aromatic Is Leaving Atom Charge X-Coordinate Y-Coordinate Z-Coordinate
1 C01 C C1 S N N 0 3.111 0.693 1.638
2 C02 C C2 N N N 0 4.546 1.025 2.124
3 C03 C C3 N N N 0 5.397 0.236 1.119
4 C04 C C4 S N N 0 4.592 0.181 -0.18
5 C05 C C5 N N N 0 5.359 0.886 -1.299
6 C07 C C6 N N N 0 7.341 0.727 -2.638
7 C08 C C7 N N N 0 3.318 0.943 0.191
8 C09 C C8 N N N 0 2.68 1.608 -0.742
9 C10 C C9 R N N 0 1.523 2.539 -0.476
10 C11 C C10 N N N 0 1.85 3.616 0.554
11 C15 C C14 N N N 0 -2.085 0.198 -2.239
12 C12 C C11 N N N 0 0.391 1.603 -0.166
13 C13 C C12 N N N 0 -0.578 1.757 -1.034
14 C14 C C13 S N N 0 -1.911 1.053 -0.982
15 C16 C C15 N N N 0 -3.033 2.091 -0.912
16 C18 C C16 N N N 0 -5.363 2.188 -0.206
17 C20 C C17 N N N 0 -6.57 1.579 0.461
18 C21 C C18 N N N 0 -7.852 2.412 0.497
19 C22 C C19 N N N 0 -7.04 2.201 1.777
20 C23 C C20 N N N 0 -0.208 2.733 -2.108
21 C24 C C21 S N N 0 1.196 3.259 -1.802
22 C26 C C22 R N N 0 0.372 0.499 0.866
23 C28 C C23 S N N 0 1.219 -1.651 1.492
24 C30 C C24 R N N 0 -0.39 -2.818 0.15
25 C31 C C25 N N N 0 -1.782 -3.452 0.203
26 C33 C C26 N N N 0 -4.102 -2.976 -0.166
27 C34 C C27 N N N 0 -4.824 -2.528 1.107
28 C35 C C28 N N N 0 -4.076 -4.504 -0.226
29 C36 C C29 N N N 0 -4.829 -2.437 -1.371
30 C37 C C30 N N N 0 -4.575 -1.227 -1.803
31 C38 C C31 S N N 0 0.639 -3.88 -0.247
32 C40 C C32 S N N 0 2.037 -3.252 -0.239
33 C42 C C33 R N N 0 2.313 -2.665 1.148
34 C44 C C34 R N N 0 0.639 1.202 2.172
35 C46 C C35 R N N 0 2.078 1.161 2.602
36 C47 C C36 N N N 0 2.482 2.432 3.358
37 N17 N N1 N N N 0 -4.206 1.499 -0.265
38 O06 O O1 N N N 0 6.547 0.15 -1.599
39 O25 O O3 N N N 0 2.109 2.951 -2.843
40 O19 O O2 N N N 0 -5.433 3.298 -0.688
41 O27 O O4 N N N 0 1.254 -0.576 0.551
42 O29 O O5 N N N 0 -0.057 -2.292 1.436
43 O43 O O9 N N N 0 3.585 -2.014 1.147
44 O32 O O6 N N N 0 -2.763 -2.476 -0.155
45 O39 O O7 N N N 0 0.342 -4.367 -1.557
46 O41 O O8 N N N 0 3.012 -4.254 -0.537
47 O45 O O10 N N N 0 0.049 2.497 2.251
48 H011 H H1 N N N 0 3.089 -0.439 1.724
49 H021 H H2 N N N 0 4.746 2.084 2.03
50 H022 H H3 N N N 0 4.696 0.652 3.128
51 H032 H H4 N N N 0 6.344 0.743 0.954
52 H031 H H5 N N N 0 5.565 -0.773 1.493
53 H041 H H6 N N N 0 4.341 -0.841 -0.452
54 H051 H H7 N N N 0 4.732 0.943 -2.189
55 H052 H H8 N N N 0 5.627 1.893 -0.978
56 H073 H H9 N N N 0 8.223 0.11 -2.806
57 H072 H H10 N N N 0 6.755 0.781 -3.556
58 H071 H H11 N N N 0 7.649 1.731 -2.345
59 H091 H H12 N N N 0 3.02 1.491 -1.772
60 H111 H H13 N N N 0 0.928 3.973 1.012
61 H113 H H14 N N N 0 2.5 3.198 1.323
62 H112 H H15 N N N 0 2.357 4.447 0.062
63 H141 H H16 N N N 0 -1.951 0.415 -0.1
64 H151 H H17 N N N 0 -3.113 0.279 -2.594
65 H152 H H18 N N N 0 -1.404 0.549 -3.014
66 H201 H H22 N N N 0 -6.674 0.499 0.349
67 H153 H H19 N N N 0 -1.863 -0.843 -2.004
68 H162 H H20 N N N 0 -2.696 2.952 -0.335
69 H161 H H21 N N N 0 -3.297 2.41 -1.921
70 H212 H H23 N N N 0 -7.824 3.401 0.039
71 H211 H H24 N N N 0 -8.8 1.881 0.409
72 H221 H H25 N N N 0 -7.453 1.531 2.531
73 H222 H H26 N N N 0 -6.476 3.051 2.161
74 H232 H H27 N N N 0 -0.206 2.231 -3.078
75 H281 H H31 N N N 0 1.387 -1.261 2.496
76 H231 H H28 N N N 0 -0.919 3.558 -2.124
77 H241 H H29 N N N 0 1.16 4.339 -1.623
78 H261 H H30 N N N 0 -0.652 0.051 0.918
79 H301 H H32 N N N 0 -0.385 -2.013 -0.585
80 H312 H H33 N N N 0 -1.828 -4.287 -0.496
81 H311 H H34 N N N 0 -1.979 -3.812 1.213
82 H342 H H35 N N N 0 -4.843 -1.439 1.15
83 H341 H H36 N N N 0 -5.845 -2.909 1.098
84 H343 H H37 N N N 0 -4.298 -2.917 1.979
85 H353 H H38 N N N 0 -3.55 -4.893 0.646
86 H351 H H39 N N N 0 -5.097 -4.885 -0.235
87 H352 H H40 N N N 0 -3.562 -4.823 -1.133
88 H361 H H41 N N N 0 -5.559 -3.05 -1.88
89 H372 H H42 N N N 0 -3.755 -0.664 -1.381
90 H371 H H43 N N N 0 -5.185 -0.791 -2.58
91 H381 H H44 N N N 0 0.606 -4.705 0.464
92 H401 H H45 N N N 0 2.086 -2.46 -0.987
93 H421 H H46 N N N 0 2.314 -3.465 1.889
94 H441 H H47 N N N 0 0.074 0.608 2.958
95 H461 H H48 N N N 0 2.091 0.372 3.429
96 H473 H H49 N N N 0 1.951 2.473 4.309
97 H472 H H50 N N N 0 3.556 2.419 3.542
98 H471 H H51 N N N 0 2.226 3.307 2.761
99 H171 H H52 N N N 0 -4.15 0.611 0.122
100 H251 H H53 N N N 0 1.916 3.395 -3.68
101 H391 H H54 N N N 0 0.958 -5.04 -1.876
102 H411 H H55 N N N 0 3.922 -3.926 -0.549
103 H431 H H56 N N N 0 3.825 -1.618 1.996
104 H451 H H57 N N N 0 -0.914 2.497 2.161